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Add hdf5 response format#1292

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JPBergsma wants to merge 31 commits intoMaterials-Consortia:mainMaterials-Consortia/optimade-python-tools:mainfrom JPBergsma:JPBergsma/add_HDF5_output_formatJPBergsma/optimade-python-tools:JPBergsma/add_HDF5_output_formatCopy head branch name to clipboard

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Commits on Jul 28, 2022

• Added support for returning optimade data in the hdf5 format.

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Commits on Jul 29, 2022

• Added extra doctstrings to hdf5.py and made setting for enabling/disabling hdf5 response format.

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• Added dependancies for hdf5 response to requirements.txt and setup.py.

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• Added enabled_response_formats to test config and disabled hdf5 tests incase hdf5 is not in the enabled_response_formats.

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• Added enabled_response_formats to test config and disabled hdf5 tests incase hdf5 is not in the enabled_response_formats.

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• Merge branch 'master' into JPBergsma/add_HDF5_output_format

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• merges changes from master.

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• checking whether the not installing of numpy on github server was caused by having two different versions in setup.py

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• added hdf5_deps to extras_require.

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• Added numpy and h5py to install_requirements in setup.py

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• Use a query that does not have an _exampl_ field to test response format.

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Commits on Aug 3, 2022

• Added extra test and the supported response formats are now listed at the info endpoint.

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Commits on Aug 4, 2022

• Made some changes to the docstrings and type definitions so it will hopefully pass the docs test on Github.

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• The test for the single entry point did not work. This is fixed now

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• Added more thorough check to see whetehr the response contnet type is json.

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• Remove numpy and h5py from 'install_requires'.

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• Revert "Remove numpy and h5py from 'install_requires'."

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• Remove h5py_deps and put numpy and h5py back in install_requires.

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Commits on Aug 9, 2022

• Processed comments from code review.

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• Fixed test_response_format.py

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• Added extra test values, and added support for handling nested lists of strings.

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• Merge branch 'master' into JPBergsma/add_HDF5_output_format

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Commits on Aug 10, 2022

• Added extra test to check if response_format is in the enabled_response_formats.

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• Merge branch 'JPBergsma/add_HDF5_output_format' of https://github.com/JPBergsma/optimade-python-tools into JPBergsma/add_HDF5_output_format

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Commits on Aug 15, 2022

• Added filenames to the header.

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Commits on Aug 16, 2022

• Changed the way the collection name is determined for the file name of the hdf5 file.

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Commits on Sep 15, 2022

• Merge branch 'master' into JPBergsma/add_HDF5_output_format

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• Update requirements.txt

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Commits on Sep 18, 2022

• updated version requirement numpy in requirements.txt

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Commits on Sep 21, 2022

• Small fields are now stored as attributes rather than datasets.

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• Merge branch 'master' into JPBergsma/add_HDF5_output_format

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